Headline

This dashboard helps facilitate the CQI analyses VIHA E.C.R. (early cognitive recline) project.

Overall

Notes

  1. The current report covers 200 total subject-event records for 3 unique counties (Muskogee, Oklahoma, Tulsa).
  2. The year of collection ranges from 2000 to 2014.
  3. The selected county is Tulsa (id value 72).

Tables

Tables - County-Year

Tables - County

Tables - Annotation

Spaghetti

Cog 1
County-Year

Cog 2
County-Year

Cog 3
County-Year

Cog 1
Subject-Year

Cog 2
Subject-Year

Cog 3
Subject-Year

Marginals

Cog 1
Collapsing Subject-Year

Cog 2
Collapsing Subject-Year

Cog 3
Collapsing Subject-Year

Documentation

Explanation -Current PDSA

SMART Aim

By implementing plans for self-care activities with established clients, primary caregivers will see a mean score reduction of at least 4 points on the ECR after 4 months of self-care activities by Dec 1, 2018.

Measures

  • Outcome: Parent Stress
    • Pre- and Post- Parent Stress Scale score change
  • Process: Completed Resiliency Plans
    • Numerator: Count of clients who completed their designated self-care activity
    • Denominator: Count of clients with a visist in a given week
  • Disruptor: Cultural issues preventing participation, toxic stress, family catastrophe

Spaghetti Notes

  • To be added:
    • Post score plots
    • Pre-post comparisons
    • Splitting out new clients from old clients to see if differences are more or less prominent
  • Mean PSS Scores - Pre:
    • Each blue dot represents a single client’s PSS score on the pre measure
    • The orange dots (connected by the red line) represent the mean PSS score for all clients on a given week.
    • Dot size is proportional to the number of clients who had a pre-PSS score.
  • Stress Activity - Success:
    • Numerator: Number of clients who indicated having completed their self-care activity
    • Denominator: All clients who responded to the self-care question (Yes/No to self-care)
    • Dot size: The dot size is proportional to the number of clients who responded to that question on a given week.

Resources

  • Current PDSA (This is accessible only to CQI participants.)

Explanation -All CQI Dashboards

  • Spaghetti
    1. Each strand represents a single program’s trajectory over time.
    2. A separate plot represents each outcome, whose value is on the y-axis.
    3. Thin faint straight vertical lines annotate program-specific events.
    4. The thick faint curvy line represnts the summarized trajectory for the strands.
  • Tables
    1. Model: Each row represents a single model. monthly averages of the model(s). Most of these cells are calculated by summing across all months (for a given program), then dividing by the number of months.
    2. Program: Each row represents a single program. Monthly averages of the program(s). Most of these cells are calculated by summing across all months (across all programs in the model), then dividing by the number of months.
    3. Program-by-Month: Each row represents one month for a given program. Most cells are the sum of events for the month.
    4. Spaghetti Annotation: Each row represents a notable event that may provide context to the spaghetti plots. Each event appears as a faint vertical line at its date.

Glossary

  • CQI: Continuous Quality Improvement. A quality management process that encourages all health care team members to continuously ask the questions, “How are we doing?” and “Can we do it better?” (source: HealthIT.gov)
  • model: The conceptual plan for clients. Models associated with MIECHV-3 are C1, PAT, and SafeCare (SC).
  • program: The the implementation of a model at an agency.
  • site: The location on an agency.
  • visit, completed: A record in the ‘encounter’ touchpoint that was successfully attended by the provider and client.
  • visit, scheduled: A record in the ‘encounter’ touchpoint regardless if it was completed. (The dashboards formerly called this an “attempted visit”, but we changed to “scheduled visit” to reduce confusion. Many programs were already using the term “attempted visit” to describe no-shows or unsuccessful visits.)

Tips

  • Spaghetti
    1. A ’spaghetti plot’is a hybrid line graph and scatterplot. The x axis represents time. The lines connect the observations of the same program (or the same provider, depending on the graph).
    2. Reveal which program is represented by hovering over a spaghetti strand
    3. Save an individual graph, hover near the top right and click on the camera icon titled, “Download plot as png”.
    4. Reset the zoom, hover near the top right and click the home icon.
  • Tables
    1. Decode program_code to program_name using the “Program” table in the Tables tab.
    2. Decode short annotation titles using the “Annotation” table in the Tables tab.

Config

Report rendered by wibeasley at 2020-02-12, 17:38 -0600 in 11 seconds.

For the sake of documentation and reproducibility, the current report was rendered in the following environment. Click the line below to expand. But you’ll probably regret it.

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R6 R6 2.4.1 2.4.1 /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/R6 /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/R6 FALSE FALSE 2019-11-12 CRAN (R 3.6.1) NA /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6
RColorBrewer RColorBrewer 1.1.2 1.1-2 /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/RColorBrewer /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/RColorBrewer FALSE FALSE 2014-12-07 CRAN (R 3.6.1) NA /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6
Rcpp Rcpp 1.0.3 1.0.3 /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/Rcpp /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/Rcpp FALSE FALSE 2019-11-08 CRAN (R 3.6.1) NA /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6
readr readr 1.3.1 1.3.1 /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/readr /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/readr FALSE FALSE 2018-12-21 CRAN (R 3.6.1) NA /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6
remotes remotes 2.1.0 2.1.0 /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/remotes /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/remotes FALSE FALSE 2019-06-24 CRAN (R 3.6.1) NA /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6
rlang rlang 0.4.4 0.4.4 /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/rlang /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/rlang FALSE FALSE 2020-01-28 CRAN (R 3.6.2) NA /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6
rmarkdown rmarkdown 2.1 2.1 /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/rmarkdown /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/rmarkdown FALSE FALSE 2020-01-20 CRAN (R 3.6.2) NA /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6
rprojroot rprojroot 1.3.2 1.3-2 /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/rprojroot /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/rprojroot FALSE FALSE 2018-01-03 CRAN (R 3.6.1) NA /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6
rstudioapi rstudioapi 0.11 0.11 /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/rstudioapi /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/rstudioapi FALSE FALSE 2020-02-07 CRAN (R 3.6.2) NA /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6
rvest rvest 0.3.5 0.3.5 /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/rvest /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/rvest FALSE FALSE 2019-11-08 CRAN (R 3.6.1) NA /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6
scales scales 1.1.0 1.1.0 /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/scales /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/scales FALSE FALSE 2019-11-18 CRAN (R 3.6.1) NA /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6
sessioninfo sessioninfo 1.1.1 1.1.1 /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/sessioninfo /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/sessioninfo FALSE FALSE 2018-11-05 CRAN (R 3.6.1) NA /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6
shiny shiny 1.4.0 1.4.0 /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/shiny /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/shiny FALSE FALSE 2019-10-10 CRAN (R 3.6.1) NA /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6
stringi stringi 1.4.5 1.4.5 /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/stringi /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/stringi FALSE FALSE 2020-01-11 CRAN (R 3.6.1) NA /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6
stringr stringr 1.4.0 1.4.0 /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/stringr /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/stringr FALSE FALSE 2019-02-10 CRAN (R 3.6.1) NA /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6
TabularManifest TabularManifest 0.1.16.9003 0.1-16.9003 /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/TabularManifest /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/TabularManifest FALSE FALSE 2019-11-16 Github () NA /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6
testthat testthat 2.3.1 2.3.1 /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/testthat /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/testthat FALSE FALSE 2019-12-01 CRAN (R 3.6.1) NA /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6
tibble tibble 2.1.3 2.1.3 /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/tibble /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/tibble FALSE FALSE 2019-06-06 CRAN (R 3.6.1) NA /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6
tidyr tidyr 1.0.2 1.0.2 /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/tidyr /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/tidyr FALSE FALSE 2020-01-24 CRAN (R 3.6.2) NA /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6
tidyselect tidyselect 1.0.0 1.0.0 /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/tidyselect /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/tidyselect FALSE FALSE 2020-01-27 CRAN (R 3.6.2) NA /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6
usethis usethis 1.5.1 1.5.1 /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/usethis /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/usethis FALSE FALSE 2019-07-04 CRAN (R 3.6.1) NA /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6
vctrs vctrs 0.2.2 0.2.2 /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/vctrs /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/vctrs FALSE FALSE 2020-01-24 CRAN (R 3.6.2) NA /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6
viridisLite viridisLite 0.3.0 0.3.0 /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/viridisLite /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/viridisLite FALSE FALSE 2018-02-01 CRAN (R 3.6.1) NA /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6
webshot webshot 0.5.2 0.5.2 /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/webshot /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/webshot FALSE FALSE 2019-11-22 CRAN (R 3.6.1) NA /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6
withr withr 2.1.2 2.1.2 /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/withr /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/withr FALSE FALSE 2018-03-15 CRAN (R 3.6.1) NA /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6
xfun xfun 0.12 0.12 /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/xfun /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/xfun FALSE FALSE 2020-01-13 CRAN (R 3.6.1) NA /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6
xml2 xml2 1.2.2 1.2.2 /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/xml2 /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/xml2 FALSE FALSE 2019-08-09 CRAN (R 3.6.1) NA /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6
xtable xtable 1.8.4 1.8-4 /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/xtable /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/xtable FALSE FALSE 2019-04-21 CRAN (R 3.6.1) NA /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6
yaml yaml 2.2.1 2.2.1 /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/yaml /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6/yaml FALSE FALSE 2020-02-01 CRAN (R 3.6.2) NA /home/wibeasley/R/x86_64-pc-linux-gnu-library/3.6
---
title: "Cognitive Longitudinal Outcomes by Program --PDSA Cycle 3"
output:
  flexdashboard::flex_dashboard:
    social: [ "menu" ]
    # orientation: rows
    vertical_layout: fill
    source_code: embed
    theme: journal
---










```{r, echo=F, message=F}
# cat("Working directory: ", getwd())
library(knitr)
library(flexdashboard)
opts_knit$set(root.dir = '../../')  #Don't combine this call with any other chunk -especially one that uses file paths.
```


```{r set-options, echo=F}
# cat("Working directory: ", getwd())
report_render_start_time <- Sys.time()
opts_chunk$set(
  results      = 'show',
  comment      = NA,
  tidy         = FALSE,
  # dpi        = 400,
  # out.width  = "650px", #This affects only the markdown, not the underlying png file.  The height will be scaled appropriately.
  fig.width    = 6,
  fig.height   = 6,
  fig.path     = 'figure-dashboard-png/'
)

echo_chunks    <- FALSE #Toggle for debugging.
message_chunks <- FALSE #Toggle for debugging.
options(width = 100) #So the output is 25% wider than the default.
read_chunk("./analysis/dashboard-1/dashboard-1.R") #This allows knitr to call chunks tagged in the underlying *.R file.
```


```{r load-sources, echo=echo_chunks, message=message_chunks}
```


```{r load-packages, echo=echo_chunks, message=message_chunks}
```


```{r declare-globals, echo=echo_chunks, results='show', message=message_chunks}
```


```{r rmd-specific, echo=echo_chunks, message=message_chunks}
# Put presentation-specific code in here.  It doesn't call a chunk in the codebehind file.
#   It should be rare (and used cautiously), but sometimes it makes sense to include code in Rmd
#   that doesn't live in the codebehind R file.
```


```{r load-data, echo=echo_chunks, results='show', message=message_chunks}
```


```{r tweak-data, echo=echo_chunks, results='show', message=message_chunks}
```

Headline
=============================================


This dashboard helps facilitate the CQI analyses VIHA E.C.R. (early cognitive recline) project.

Overall {.tabset data-width=300}
---------------------------------------------


### Notes
1. The current report covers `r scales::comma(nrow(ds))` total subject-event records for `r dplyr::n_distinct(ds$county)` unique counties (`r paste(sort(unique(ds$county)), collapse=", ")`).
1. The year of collection ranges from `r min(ds$year, na.rm=T)` to  `r max(ds$year, na.rm=T)`.
1. The selected county is `r county_name_focus` (id value `r county_id_focus`).

{.tabset}
---------------------------------------------


```{r headline-graph, echo=echo_chunks, results='asis', message=message_chunks}
```

Tables
=============================================




{.tabset}
---------------------------------------------

### Tables - County-Year
```{r tables-county-year, echo=echo_chunks, message=message_chunks}
```

### Tables - County

```{r tables-county, echo=echo_chunks, message=message_chunks}
```


### Tables - Annotation

```{r tables-annotation, echo=echo_chunks, message=message_chunks}
```


Spaghetti
=============================================




{.tabset}
---------------------------------------------

```{r spaghetti, echo=echo_chunks, message=message_chunks, results='asis', fig.height=10, fig.width=20}
```


Marginals
=============================================


{.tabset}
---------------------------------------------

```{r marginals, echo=echo_chunks, message=message_chunks, results='asis'} 
```

Documentation
=============================================


{.tabset}
---------------------------------------------

### Explanation -Current PDSA

#### SMART Aim
By implementing plans for self-care activities with established clients, primary caregivers will see a mean score reduction of at least 4 points on the ECR after 4 months of self-care activities by Dec 1, 2018.

#### Measures 

* **Outcome**: Parent Stress
    * Pre- and Post- Parent Stress Scale score change
    
* **Process**: Completed Resiliency Plans
    * *Numerator*: Count of clients who completed their designated self-care activity
    * *Denominator*: Count of clients with a visist in a given week
    
* **Disruptor**: Cultural issues preventing participation, toxic stress, family catastrophe

#### Spaghetti Notes

* **To be added**:
    * Post score plots
    * Pre-post comparisons
    * Splitting out new clients from old clients to see if differences are more or less prominent

* **Mean PSS Scores - Pre**: 
    * Each blue dot represents a single client's PSS score on the pre measure
    * The orange dots (connected by the red line) represent the mean PSS score for all clients on a given week.
    * Dot size is proportional to the number of clients who had a pre-PSS score.

* **Stress Activity - Success**: 
    * *Numerator*: Number of clients who indicated having completed their self-care activity
    * *Denominator*: All clients who responded to the self-care question (Yes/No to self-care)
    * *Dot size*: The dot size is proportional to the number of clients who responded to that question on a given week.

#### Resources

* [Current PDSA](https://docs.google.com/document/d/1IcwCCkr1EkoeBJpEKdF2v-E0gKI6wGacCv9oZU1CE7I/edit#) (This is accessible only to CQI participants.)



### Explanation -All CQI Dashboards

```{r, child = "../common/dashboard/documentation-all-dashboards-1.Rmd"}
```

### Glossary

```{r, child = "../common/dashboard/documentation-glossary-1.Rmd"}
```

### Tips

```{r, child = "../common/dashboard/documentation-tips-1.Rmd"}
```

### Config

```{r, child = "../common/dashboard/documentation-config-1.Rmd"}
```